All datasets’ clone information tables, in each table we show the
clone CTaa, the status (shared clone or unique
clone), the number of occurence in each sample, the total number of
occurence, and the Shannon entropy.
Saved file name: All_clone_tables/All_clones_in_dataset name.xlsx
These data tables are used to compare the Shannon entropy of real clones and sampled cells
Saved file name: Merged_real_clone_and_sampled_cells_Shannon_entropy/merge_all_sampled_and_real_Shannon_entropy_dataset name.xlsx
Saved file name: Input_for_double_y_axis_plots/summmary_real_clone_and_sampled_clones_Shannon_entropy_dataset_dataset name.xlsx
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Dataset Dataset1_CD45
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Dataset Dataset2
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Dataset Dataset3
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Dataset Dataset4_m366_vs_m367
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Dataset Dataset4_m366_vs_m368
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Dataset Dataset4_m366_vs_m369
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Dataset Dataset4_m367_vs_m368
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Dataset Dataset4_m367_vs_m369
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Dataset Dataset4_m368_vs_m369
Saved file name: Input_for_double_y_axis_plots_filter10cells/summmary_real_clone_and_sampled_clones_Shannon_entropy_dataset_dataset name.filter10cells.xlsx
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Dataset Dataset1_CD45
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Dataset Dataset2
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Dataset Dataset3
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Dataset Dataset4_m366_vs_m367
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Dataset Dataset4_m366_vs_m368
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Dataset Dataset4_m366_vs_m369
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Dataset Dataset4_m367_vs_m368
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Dataset Dataset4_m367_vs_m369
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Dataset Dataset4_m368_vs_m369
In the Dataset 4, the following comparisons do not have any “shared clones” between the 2 samples:
m366 vs m368
m366 vs m369
m367 vs m368
m367 vs m369
we exclude these comparisons from the analysis of Dataset 4.
Tables which contain the clone information, Shannon entropy and MHI of shared clones between samples. Empty cells (NA cells) mean that the clone is not shared in the samples or the number of occurrences less than 10.
Save file names: Dataset1_CD45.xlsx, Dataset1_GFP.xlsx, Dataset2.xlsx, Dataset4_m366_vs_m367.xlsx, Dataset3.xlsx, Dataset4_m368_vs_m369.xlsx
Tables which contain the MHI of clone versus clone, where clones are selected from different categories: “unique clones”, “shared in 3 samples clones” or “shared in 2 samples clones”. Available comparisons are: “shared clones” vs “shared clones”, “unique clones” vs “unique clones”, “shared clones” vs “unique clones”. Clones are required to have more than 10 cells in every sample in the dataset, not total >= 10 cells.
In this analysis we just consider Dataset 2, Dataset 3 and Dataset 4.
Since tables in this section are too large, we do not display them in HTML file. Please find the saved .xlsx file in the One Drive folder.
[1] “Table saved as MHI_clone_vs_clone/MHI_shared vs shared_Dataset3.xlsx”
[1] “Table saved as MHI_clone_vs_clone/MHI_unique vs shared_Dataset3.xlsx”
[1] “Table saved as MHI_clone_vs_clone/MHI_unique vs unique_Dataset3.xlsx”
Since tables in this section are too large, we do not display them in HTML file. Please find the saved .xlsx file in the One Drive folder.
Save file names: combine_MHI_sample_vs_sample_and_clone_vs_clone_dataset name.xlsx
[1] “Table saved as Combined_MHI/combine_MHI_sample_vs_sample_and_clone_vs_clone_Dataset2.xlsx” #### Dataset Dataset3
[1] “Table saved as Combined_MHI/combine_MHI_sample_vs_sample_and_clone_vs_clone_Dataset3.xlsx” #### Dataset Dataset4_m366_vs_m367
[1] “Table saved as Combined_MHI/combine_MHI_sample_vs_sample_and_clone_vs_clone_Dataset4_m366_vs_m367.xlsx” #### Dataset Dataset4_m368_vs_m369
[1] “Table saved as Combined_MHI/combine_MHI_sample_vs_sample_and_clone_vs_clone_Dataset4_m368_vs_m369.xlsx”